Create FC-Virus #51579
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| #!/bin/bash | ||||||||||||||||||||||||||||||||||
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| export LDFLAGS="$LDFLAGS -L$PREFIX/lib" | ||||||||||||||||||||||||||||||||||
| export CPATH=${PREFIX}/include | ||||||||||||||||||||||||||||||||||
| export LIBRARY_PATH=$LIBRARY_PATH:${PREFIX}/lib | ||||||||||||||||||||||||||||||||||
| export C_INCLUDE_PATH=$C_INCLUDE_PATH:${PREFIX}/include | ||||||||||||||||||||||||||||||||||
| #export PATH=$BUILD_PREFIX/bin:$PATH | ||||||||||||||||||||||||||||||||||
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| make \ | ||||||||||||||||||||||||||||||||||
| CXX="${CXX}" \ | ||||||||||||||||||||||||||||||||||
| CFLAGS="${CFLAGS} " | ||||||||||||||||||||||||||||||||||
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| install -d "${PREFIX}/bin" | ||||||||||||||||||||||||||||||||||
| install ./bin/fc-virus "${PREFIX}/bin/" | ||||||||||||||||||||||||||||||||||
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There was a problem hiding this comment. Improve installation process with error handling and verification. The installation commands need error handling and post-install verification. Apply these improvements: -install -d "${PREFIX}/bin"
-install ./bin/fc-virus "${PREFIX}/bin/"
+# Create installation directory
+install -d "${PREFIX}/bin" || { echo "Failed to create bin directory"; exit 1; }
+
+# Install binary
+install ./bin/fc-virus "${PREFIX}/bin/" || { echo "Failed to install fc-virus"; exit 1; }
+
+# Verify installation
+if [ ! -x "${PREFIX}/bin/fc-virus" ]; then
+ echo "Installation verification failed"
+ exit 1
+fi
+
+# Clean up
+rm -rf ./bin📝 Committable suggestion
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| {% set version = "1.0.1" %} | ||||||||||||||
| package: | ||||||||||||||
| name: fc-virus | ||||||||||||||
| version: {{ version }} | ||||||||||||||
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| source: | ||||||||||||||
| url: https://github.com/qdu-bioinfo/fc-virus/archive/v{{ version }}.tar.gz | ||||||||||||||
| sha256: 6e49ccaebdc3bb44c0f02a761f2220615207c31cc13e4d6eea29b761071e4a83 | ||||||||||||||
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| build: | ||||||||||||||
| number: 0 | ||||||||||||||
| run_exports: | ||||||||||||||
| - {{ pin_subpackage("fc-virus", max_pin="x") }} | ||||||||||||||
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| requirements: | ||||||||||||||
| build: | ||||||||||||||
| - {{ compiler("c") }} | ||||||||||||||
| - {{ compiler("cxx") }} | ||||||||||||||
| - make | ||||||||||||||
| host: | ||||||||||||||
| - make | ||||||||||||||
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| - boost | ||||||||||||||
| - zlib | ||||||||||||||
| - htslib | ||||||||||||||
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There was a problem hiding this comment. 🛠️ Refactor suggestion Add version constraints for core dependencies For better reproducibility, consider adding version constraints for core dependencies: - - boost
- - zlib
- - htslib
+ - boost >=1.74.0
+ - zlib >=1.2.11
+ - htslib >=1.15📝 Committable suggestion
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| about: | ||||||||||||||
| home: https://github.com/qdu-bioinfo/fc-virus | ||||||||||||||
| license: MIT | ||||||||||||||
| license_file: LICENSE | ||||||||||||||
| summary: "Accurate Assembly of Full-length Consensus for Viral Quasispecies" | ||||||||||||||
| dev_url: https://github.com/qdu-bioinfo/fc-virus | ||||||||||||||
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| test: | ||||||||||||||
| commands: | ||||||||||||||
| - ./bin/fc-virus --help | ||||||||||||||
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There was a problem hiding this comment. 🛠️ Refactor suggestion Enhance test coverage and fix binary path.
Apply this diff: test:
commands:
- - ./bin/fc-virus --help
+ - $PREFIX/bin/fc-virus --help
+ - $PREFIX/bin/fc-virus --version
+ # Add a basic functionality test if possible
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| extra: | ||||||||||||||
| additional-platforms: | ||||||||||||||
| - linux-aarch64 | ||||||||||||||
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Enhance build command with error handling and optimization flags.
The current build command lacks error handling and important compiler flags.
Apply this diff to improve the build command:
📝 Committable suggestion